miRNA: 3'- ucGUCCGUC----UCCG--CCGCGaCGCuuUC- -5'
miRNA: 3'- uCGUCCGUCuCCGcCG-CGa------------CGCUUUC- -5'
miRNA: 3'- uCGUcCGUCUCCGCCG-CGAcGCUuuc -5'
miRNA: 3'- -UCGUCCGUcUCCG-CCGCgACGCUUuc -5'
Results 21 - 24 of 24 are showing below:
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| ID | Location | Perfect MFE.* | RefSeq Acc. |
strand
|
Start Position | R_P_ratio# | P value |
| Predicted miRNA align pattern | |||||||
| 252 | 5' | -59.1 | AC_000008.1 | + | 24685 | 0.67 | 0.297306 |
|
Target: 5'- -cCAGGUAGugccGGGCccGGCGCcGCGggGGu -3' miRNA: 3'- ucGUCCGUC----UCCG--CCGCGaCGCuuUC- -5' |
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| 252 | 5' | -59.1 | AC_000008.1 | + | 32079 | 0.66 | 0.342081 |
|
Target: 5'- cGCGGGCGGuGGCuGCaGCggcugaagcggcgGCGGAGGc -3' miRNA: 3'- uCGUCCGUCuCCGcCG-CGa------------CGCUUUC- -5' |
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| 252 | 5' | -59.1 | AC_000008.1 | + | 20666 | 0.66 | 0.362707 |
|
Target: 5'- cGCA-GCGGGGGCGGCaGCUuCGGc-- -3' miRNA: 3'- uCGUcCGUCUCCGCCG-CGAcGCUuuc -5' |
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| 252 | 5' | -59.1 | AC_000008.1 | + | 22145 | 0.73 | 0.107676 |
|
Target: 5'- cAGCAGGCGcGGGCgGGUGgUGCGAGu- -3' miRNA: 3'- -UCGUCCGUcUCCG-CCGCgACGCUUuc -5' |
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Note:
When operating RNAhybrid, the pipeline first calculates the perfect minimum free energy (Perfect mfe *) of a putative miRNA when the entire putative miRNA binds to a perfectly complementary target site, then it calculates the minimum free energy of RNA duplex (mfe of the miRNA/mRNA duplex), abbreviated as Rd_mfe. An alignment for which the Rd_mfe to its correspondent Perfect mfe ratio (R_P_ratio #) is more than 66% is regarded as a positive alignment as described by Krek et al. (21). The P_value is calculated by RNAhybrid.
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